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Classification and comparison of small RNAs from plants

Annual review of plant biology, 2013-01, Vol.64 (1), p.137-159

Axtell, Michael J

2013

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Revisiting Criteria for Plant MicroRNA Annotation in the Era of Big Data

The Plant cell, 2018-02, Vol.30 (2), p.272-284

2018

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ShortStack: comprehensive annotation and quantification of small RNA genes

RNA (Cambridge), 2013-06, Vol.19 (6), p.740-751

Axtell, Michael J

2013

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Analysis of Complementarity Requirements for Plant MicroRNA Targeting Using a Nicotiana benthamiana Quantitative Transient Assay

The Plant cell, 2014-02, Vol.26 (2), p.741-753

2014

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CleaveLand: a pipeline for using degradome data to find cleaved small RNA targets

Bioinformatics, 2009-01, Vol.25 (1), p.130-131

2009

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MicroRNAs from the parasitic plant Cuscuta campestris target host messenger RNAs

Nature (London), 2018-01, Vol.553 (7686), p.82-85

2018

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AGO4 is specifically required for heterochromatic siRNA accumulation at Pol V‐dependent loci in Arabidopsis thaliana

The Plant journal : for cell and molecular biology, 2017-04, Vol.90 (1), p.37-47

2017

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miR156 and miR390 Regulate tasiRNA Accumulation and Developmental Timing in Physcomitrella patens

The Plant cell, 2012-12, Vol.24 (12), p.4837-4849

2012

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Small RNA warfare: exploring origins and function of trans-species microRNAs from the parasitic plant Cuscuta

Current opinion in plant biology, 2019-08, Vol.50, p.76-81

2019

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Analysis of RDR1/RDR2/RDR6‐independent small RNAs in Arabidopsis thaliana improves MIRNA annotations and reveals unexplained types of short interfering RNA loci

The Plant journal : for cell and molecular biology, 2018-06, Vol.94 (6), p.1051-1063

2018

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Improved Placement of Multi-mapping Small RNAs

G3 : genes - genomes - genetics, 2016-07, Vol.6 (7), p.2103-2111

2016

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MSH1-induced heritable enhanced growth vigor through grafting is associated with the RdDM pathway in plants

Nature communications, 2020-10, Vol.11 (1), p.5343-5343, Article 5343

2020

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Antiquity of MicroRNAs and Their Targets in Land Plants

The Plant cell, 2005-06, Vol.17 (6), p.1658-1673

2005

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Common Functions for Diverse Small RNAs of Land Plants

The Plant cell, 2007-06, Vol.19 (6), p.1750-1769

2007

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Segregation of an MSH1 RNAi transgene produces heritable non-genetic memory in association with methylome reprogramming

Nature communications, 2020-05, Vol.11 (1), p.2214-2214, Article 2214

2020

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RNA Secondary Structural Determinants of miRNA Precursor Processing in Arabidopsis

Current biology, 2010-01, Vol.20 (1), p.37-41

2010

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Identification and annotation of small RNA genes using ShortStack

Methods (San Diego, Calif.), 2014-05, Vol.67 (1), p.20-27

2014

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Initiation of RPS2-Specified Disease Resistance in Arabidopsis Is Coupled to the AvrRpt2-Directed Elimination of RIN4

Cell, 2003-02, Vol.112 (3), p.369-377

2003

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The Helicase and RNaseIIIa Domains of Arabidopsis Dicer-Like1 Modulate Catalytic Parameters during MicroRNA Biogenesis

Plant physiology (Bethesda), 2012-06, Vol.159 (2), p.748-758

2012

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Sliced microRNA targets and precise loop-first processing of MIR319 hairpins revealed by analysis of the Physcomitrella patens degradome

RNA (Cambridge), 2009-12, Vol.15 (12), p.2112-2121

2009

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Seeing the forest for the trees: annotating small RNA producing genes in plants

Current opinion in plant biology, 2014-04, Vol.18, p.87-95

2014

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Compensatory sequence variation between trans -species small RNAs and their target sites

eLife, 2019-12, Vol.8

2019

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Long-range genomic enrichment, sequencing, and assembly to determine unknown sequences flanking a known microRNA

PloS one, 2013-12, Vol.8 (12), p.e83721-e83721

2013

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Arabidopsis lyrata Small RNAs: Transient MIRNA and Small Interfering RNA Loci within the Arabidopsis Genus

The Plant cell, 2010-04, Vol.22 (4), p.1090-1103

2010

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Physcomitrella patens DCL3 is required for 22-24 nt siRNA accumulation, suppression of retrotransposon-derived transcripts, and normal development

PLoS genetics, 2008-12, Vol.4 (12), p.e1000314-e1000314

2008

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Classification and comparison of small RNAs from plants

Revisiting Criteria for Plant MicroRNA Annotation in the Era of Big Data

ShortStack: comprehensive annotation and quantification of small RNA genes

Analysis of Complementarity Requirements for Plant MicroRNA Targeting Using a Nicotiana benthamiana Quantitative Transient Assay

CleaveLand: a pipeline for using degradome data to find cleaved small RNA targets

MicroRNAs from the parasitic plant Cuscuta campestris target host messenger RNAs

AGO4 is specifically required for heterochromatic siRNA accumulation at Pol V‐dependent loci in Arabidopsis thaliana

miR156 and miR390 Regulate tasiRNA Accumulation and Developmental Timing in Physcomitrella patens

Small RNA warfare: exploring origins and function of trans-species microRNAs from the parasitic plant Cuscuta

Analysis of RDR1/RDR2/RDR6‐independent small RNAs in Arabidopsis thaliana improves MIRNA annotations and reveals unexplained types of short interfering RNA loci

Improved Placement of Multi-mapping Small RNAs

MSH1-induced heritable enhanced growth vigor through grafting is associated with the RdDM pathway in plants

Antiquity of MicroRNAs and Their Targets in Land Plants

Common Functions for Diverse Small RNAs of Land Plants

Segregation of an MSH1 RNAi transgene produces heritable non-genetic memory in association with methylome reprogramming

RNA Secondary Structural Determinants of miRNA Precursor Processing in Arabidopsis

Identification and annotation of small RNA genes using ShortStack

Initiation of RPS2-Specified Disease Resistance in Arabidopsis Is Coupled to the AvrRpt2-Directed Elimination of RIN4

The Helicase and RNaseIIIa Domains of Arabidopsis Dicer-Like1 Modulate Catalytic Parameters during MicroRNA Biogenesis

Sliced microRNA targets and precise loop-first processing of MIR319 hairpins revealed by analysis of the Physcomitrella patens degradome

Seeing the forest for the trees: annotating small RNA producing genes in plants

Compensatory sequence variation between trans -species small RNAs and their target sites

Long-range genomic enrichment, sequencing, and assembly to determine unknown sequences flanking a known microRNA

Arabidopsis lyrata Small RNAs: Transient MIRNA and Small Interfering RNA Loci within the Arabidopsis Genus

Physcomitrella patens DCL3 is required for 22-24 nt siRNA accumulation, suppression of retrotransposon-derived transcripts, and normal development

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